Type 2 isopentenyl diphosphate isomerase from a thermoacidophilic archaeon Sulfolobus shibatae

Eur J Biochem. 2004 Mar;271(6):1087-93. doi: 10.1111/j.1432-1033.2004.04010.x.


Although isopentenyl diphosphate-dimethylallyl diphosphate isomerase is thought to be essential for archaea because they use the mevalonate pathway, its corresponding activity has not been detected in any archaea. A novel type of the enzyme, which has no sequence similarity to the known, well-studied type of enzymes, was recently reported in some bacterial strains. In this study, we describe the cloning of a gene of a homologue of the novel bacterial isomerase from a thermoacidophilic archaeon Sulfolobus shibatae. The gene was heterologously expressed in Escherichia coli, and the recombinant enzyme was purified and characterized. The thermostable archaeal enzyme is tetrameric, and requires NAD(P)H and Mg2+ for activity, similar to its bacterial homologues. Using its apoenzyme, we were able to confirm that the archaeal enzyme is strictly dependent on FMN. Moreover, we provide evidence to show that the enzyme also has NADH dehydrogenase activity although it catalyzes the isomerase reaction without consuming any detectable amount of NADH.

MeSH terms

  • Amino Acid Sequence
  • Apoenzymes / metabolism
  • Archaeal Proteins / chemistry
  • Archaeal Proteins / genetics
  • Archaeal Proteins / metabolism*
  • Carbon-Carbon Double Bond Isomerases / chemistry
  • Carbon-Carbon Double Bond Isomerases / genetics
  • Carbon-Carbon Double Bond Isomerases / metabolism*
  • Cloning, Molecular
  • Escherichia coli / metabolism
  • Flavin Mononucleotide / metabolism
  • Hemiterpenes / metabolism
  • Hydrogen Peroxide / metabolism
  • Magnesium / chemistry
  • Magnesium / metabolism
  • Molecular Sequence Data
  • NADH Dehydrogenase / metabolism
  • NADP / metabolism
  • Organophosphorus Compounds / metabolism
  • Recombinant Proteins / chemistry
  • Recombinant Proteins / genetics
  • Recombinant Proteins / metabolism
  • Sequence Alignment
  • Sulfolobus / enzymology*


  • Apoenzymes
  • Archaeal Proteins
  • Hemiterpenes
  • Organophosphorus Compounds
  • Recombinant Proteins
  • 3,3-dimethylallyl pyrophosphate
  • NADP
  • Flavin Mononucleotide
  • Hydrogen Peroxide
  • NADH Dehydrogenase
  • Carbon-Carbon Double Bond Isomerases
  • isopentenyldiphosphate delta-isomerase
  • Magnesium

Associated data

  • GENBANK/AB118244
  • GENBANK/AB118245